PetscBinaryWrite: Remove `istemp` boolean flag

Merge branch 'maint'

Merge branch 'jolivet/fix-matseqbaijgetarray' into 'maint'

Expose MatSeqBAIJ[Get|Restore]Array

See merge request petsc/petsc!2233

Expose MatSeqBAIJ[Get|Restore]Array

Merge branch 'stefano_zampini/sbaij-example' [PR #1940]

* stefano_zampini/sbaij-example:
MATMPISBAIJ: add missing nullify for composed CSR function
MatMPISBAIJSetPreallocationCSR: Fix for roworiente

Merge branch 'stefano_zampini/sbaij-example' [PR #1940]

* stefano_zampini/sbaij-example:
MATMPISBAIJ: add missing nullify for composed CSR function
MatMPISBAIJSetPreallocationCSR: Fix for roworiented input
Mat tests ex233: added tests for SetPreallocationCSR functions

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MatMPISBAIJSetPreallocationCSR: Fix for roworiented input

add fast path insertion for bs==1 for the other block classes

Merge branch 'barry/2019-08-01/fix-matmpisbaijsetpreallocationcsr' [PR #1941]

* barry/2019-08-01/fix-matmpisbaijsetpreallocationcsr:
Fix bug in MatMPISBAIJSetPreallocationCSR()
Add test case that de

Merge branch 'barry/2019-08-01/fix-matmpisbaijsetpreallocationcsr' [PR #1941]

* barry/2019-08-01/fix-matmpisbaijsetpreallocationcsr:
Fix bug in MatMPISBAIJSetPreallocationCSR()
Add test case that detected bug
Fix over-preallocation that occured in MatMPISBAIJSetPreallocationCSR() and MatSeqSBAIJSetPreallocationCSR()
Added documentation MATMPI[B]AIJ and MATSEQ[B]AIJ noting their support of two features

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Fix bug in MatMPISBAIJSetPreallocationCSR()

Add test case that detected bug

Fix over-preallocation that occured in MatMPISBAIJSetPreallocationCSR() and MatSeqSBAIJSetPreallocationCSR()

Added docum

Fix bug in MatMPISBAIJSetPreallocationCSR()

Add test case that detected bug

Fix over-preallocation that occured in MatMPISBAIJSetPreallocationCSR() and MatSeqSBAIJSetPreallocationCSR()

Added documentation MATMPI[B]AIJ and MATSEQ[B]AIJ noting their support of two features

Commit-type: optimization, bug-fix, testing, documentation, example
Reported-by: Pierre Jolivet <pierre.jolivet@enseeiht.fr>

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Fix manual pages for MatXXXYBAIJSetPreallocationCSR() routines

Commit-type: documentation

Merge branch 'barry/2019-07-30/add-use-petscintcast-corrected' [PR #1924]

* barry/2019-07-30/add-use-petscintcast-corrected:
Add PetscIntCast() to check for integer overflow

Add PetscIntCast() to check for integer overflow

Used in MatSeqXAIJSetPreallocation() to determine if the number of nonzeros in the matrix
(and hence the ai[] column indices and lengths of a

Add PetscIntCast() to check for integer overflow

Used in MatSeqXAIJSetPreallocation() to determine if the number of nonzeros in the matrix
(and hence the ai[] column indices and lengths of aj[] columns indices and a[] numerical values) fit
in PetscInt.

Commit-type: error-checking
Reported-by: Karl Lin <karl.linkui@gmail.com>

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Merge branch 'gropp/doc-fixes-1' [PR #1838]

Merge branch 'barry/no-batch-script'

No more batch submission script; this is all due to a very smart idea of Lisandro Dalcin

*) removed or fixed all remaining --know-xx options that required a batch submission script
*) removed all de

No more batch submission script; this is all due to a very smart idea of Lisandro Dalcin

*) removed or fixed all remaining --know-xx options that required a batch submission script
*) removed all details of --known-size-- that are no longer needed
*) cleaned up BAIJMKL source code, made it work with the rest of PETSc and removed is
dependence on a batch submission script, added test case for BAIJMKL
*) update the installation guide on batsch submissions and OpenMP
*) print MKL version, print OpenMP usage with mkl_sparse options

Commit-type: bug-fix, portability-fix, style-fix, feature, documentation, example
Thanks-to: Lisandro Dalcin <dalcinl@gmail.com>

$ ./configure --with-batch
===============================================================================
Configuring PETSc to compile on your system
===============================================================================
=============================================================================== ***** WARNING: Cannot determine if MPI_INT64_T works on your system in batch-mode! Assuming it does work. Run with --known-mpi-int64_t=0 if you know it does not work (very unlikely). Run with --known-mpi-int64_t=1 to remove this warning message. warning message ***** =============================================================================== =============================================================================== ***** WARNING: Cannot determine if MPI_C_DOUBLE_COMPLEX works on your system in batch-mode! Assuming it does work. Run with --known-mpi-c-double-complex=0 if you know it does not work (very unlikely). Run with --known-mpi-c-double-complex=1 to remove this warning message. warning message ***** =============================================================================== =============================================================================== ***** WARNING: Cannot verify that MPI is a shared library - in batch-mode! If MPI is a static library but linked into multiple shared libraries that the application uses, sometimes compiles work - but one might get run-time errors. If you know that the MPI library is shared - run with --known-mpi-shared-libraries=1 option to remove this warning message ***** =============================================================================== =============================================================================== ***** WARNING: Cannot determine if BLAS/LAPACK uses 32 bit or 64 bit integers in batch-mode! Assuming 32 bit integers. Run with --known-64-bit-blas-indices if you know they are 64 bit. Run with --known-64-bit-blas-indices=0 to remove this warning message. warning message ***** ===============================================================================

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Merge branch 'maint'

fix MatMissingDiagonal() for seqaij and seqbaij when matrix is non-square

Merge from doc-fixes branch

Fixes for doctext update

Merged in barry/optimize-aij-da (pull request #1762)

Non-numeric optimizations focused on AIJ, MatFDColoring, and DMCreateMatrix_DA_*AIJ, looking to improve performance in GPU environments

Non-numeric optimizations focused on AIJ, MatFDColoring, and DMCreateMatrix_DA_*AIJ, looking to improve performance in GPU environments

1) PetscCalloc*() now uses system calloc()
2) Merged some Pets

Non-numeric optimizations focused on AIJ, MatFDColoring, and DMCreateMatrix_DA_*AIJ, looking to improve performance in GPU environments

1) PetscCalloc*() now uses system calloc()
2) Merged some PetscMalloc*()
3) Eliminated unneeded PetscCalloc*()
4) Removed some memory allocations and copies in MatFDColoringSetUp(), added local variables for better compiler optimization
5) Added MatSetValues_SeqAIJ_SortedFull(), added MatSetOption(MAT_SORTED_FULL)
6) Optimized DMCreateMatrix_DA_*AIJ for nonperiodic case to automatically have sorted columns (faster MatSetValues() times)
7) Eliminated call to PetscMemzero() in PetscFree()

Commit-type: style-fix, feature

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Merge remote-tracking branch 'origin/barry/add-petscarrayxxx-ops' [PR #1771]

fix -Wunused-value and -Wunused-but-set-variable warnings

Add PetscArraycmp(), PetscArraycpy(), PetscArrayzero(), PetscArraymove(), update code to use new forms

Replace a couple multi-mallocs with a single malloc
Replace backwards loops in MatSetValues_*()

Add PetscArraycmp(), PetscArraycpy(), PetscArrayzero(), PetscArraymove(), update code to use new forms

Replace a couple multi-mallocs with a single malloc
Replace backwards loops in MatSetValues_*() with PetscArraymove()

Commit-type: style-fix, feature

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Merge remote-tracking branch 'origin/maint'

Merged in rmills/fix-doc-paradigm-spelling/maint (pull request #1765)

Fixed misspelling of "paradigm" throughout manual pages.